Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= Dr_sW_003_B02
(305 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q9VU02|SMD1_DROME Probable small nuclear ribonucleoprote... 93 2e-19
sp|P62315|SMD1_MOUSE Small nuclear ribonucleoprotein Sm D1 ... 92 5e-19
sp|O42661|SMD1_SCHPO Probable small nuclear ribonucleoprote... 87 2e-17
sp|Q10013|SMD1_CAEEL Probable small nuclear ribonucleoprote... 82 5e-16
sp|Q02260|SMD1_YEAST Small nuclear ribonucleoprotein Sm D1 ... 35 0.054
sp|Q9UUC6|SMD3_SCHPO Probable small nuclear ribonucleoprote... 34 0.092
sp|O44437|SMD3_DROME Small nuclear ribonucleoprotein SM D3 ... 33 0.16
sp|Q17348|SMD3_CAEEL Small nuclear ribonucleoprotein Sm D3 ... 32 0.35
sp|P62318|SMD3_HUMAN Small nuclear ribonucleoprotein Sm D3 ... 31 1.0
sp|Q9LGE6|LSM4_ORYSA Probable U6 snRNA-associated Sm-like p... 30 1.7
>sp|Q9VU02|SMD1_DROME Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 124
Score = 92.8 bits (229), Expect = 2e-19
Identities = 40/59 (67%), Positives = 54/59 (91%)
Frame = +1
Query: 1 MNTHLRSVKLTSKNKEPINLDTFSIRGNNIRYFILPETLPLDTMLIDDTPKVSKKKKET 177
MNTHL+SV++T KN++P++L+T SIRGNNIRYFILP++LPL+T+LIDDTPK KKK++
Sbjct: 36 MNTHLKSVRMTIKNRDPVHLETLSIRGNNIRYFILPDSLPLETLLIDDTPKSKTKKKDS 94
>sp|P62315|SMD1_MOUSE Small nuclear ribonucleoprotein Sm D1 (snRNP core protein D1)
(Sm-D1) (Sm-D autoantigen)
sp|P62314|SMD1_HUMAN Small nuclear ribonucleoprotein Sm D1 (snRNP core protein D1)
(Sm-D1) (Sm-D autoantigen)
Length = 119
Score = 91.7 bits (226), Expect = 5e-19
Identities = 40/61 (65%), Positives = 52/61 (85%)
Frame = +1
Query: 1 MNTHLRSVKLTSKNKEPINLDTFSIRGNNIRYFILPETLPLDTMLIDDTPKVSKKKKETT 180
MNTHL++VK+T KN+EP+ L+T SIRGNNIRYFILP++LPLDT+L+D PKV KK+E
Sbjct: 36 MNTHLKAVKMTLKNREPVQLETLSIRGNNIRYFILPDSLPLDTLLVDVEPKVKSKKREAV 95
Query: 181 S 183
+
Sbjct: 96 A 96
>sp|O42661|SMD1_SCHPO Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 117
Score = 86.7 bits (213), Expect = 2e-17
Identities = 38/58 (65%), Positives = 51/58 (87%)
Frame = +1
Query: 1 MNTHLRSVKLTSKNKEPINLDTFSIRGNNIRYFILPETLPLDTMLIDDTPKVSKKKKE 174
MNTHL++VK+T K +EP+ ++T SIRGNNIRY+ILP++LPLDT+LIDD+ K +KKKE
Sbjct: 36 MNTHLKAVKMTVKGREPVPVETLSIRGNNIRYYILPDSLPLDTLLIDDSTKPKQKKKE 93
>sp|Q10013|SMD1_CAEEL Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 126
Score = 81.6 bits (200), Expect = 5e-16
Identities = 37/51 (72%), Positives = 43/51 (84%)
Frame = +1
Query: 1 MNTHLRSVKLTSKNKEPINLDTFSIRGNNIRYFILPETLPLDTMLIDDTPK 153
MNTHLR+V +T KNKEP+ LDT SIRGNNIRY ILP+ L LDT+LIDD P+
Sbjct: 36 MNTHLRAVSMTVKNKEPVKLDTLSIRGNNIRYIILPDPLALDTLLIDDEPR 86
>sp|Q02260|SMD1_YEAST Small nuclear ribonucleoprotein Sm D1 (snRNP core protein D1)
(Sm-D1)
Length = 146
Score = 35.0 bits (79), Expect = 0.054
Identities = 15/29 (51%), Positives = 22/29 (75%)
Frame = +1
Query: 55 NLDTFSIRGNNIRYFILPETLPLDTMLID 141
+L +IRGN IR ILP++L LD++L+D
Sbjct: 81 SLQYINIRGNTIRQIILPDSLNLDSLLVD 109
>sp|Q9UUC6|SMD3_SCHPO Probable small nuclear ribonucleoprotein Sm D3 (snRNP core protein
D3) (Sm-D3)
Length = 97
Score = 34.3 bits (77), Expect = 0.092
Identities = 14/39 (35%), Positives = 26/39 (66%)
Frame = +1
Query: 1 MNTHLRSVKLTSKNKEPINLDTFSIRGNNIRYFILPETL 117
MN +R + +T+++ +LD IRG++IR+ I+P+ L
Sbjct: 37 MNCQMRDISVTARDGRVSHLDQVYIRGSHIRFLIVPDML 75
>sp|O44437|SMD3_DROME Small nuclear ribonucleoprotein SM D3 (snRNP core protein D3)
(SM-D3)
Length = 151
Score = 33.5 bits (75), Expect = 0.16
Identities = 17/51 (33%), Positives = 26/51 (50%)
Frame = +1
Query: 1 MNTHLRSVKLTSKNKEPINLDTFSIRGNNIRYFILPETLPLDTMLIDDTPK 153
MN + + +T ++ NL+ IRG+ IR+ ILP+ L M T K
Sbjct: 39 MNCQMTQITVTYRDGRTANLENVYIRGSKIRFLILPDMLKNAPMFKKQTGK 89
>sp|Q17348|SMD3_CAEEL Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
Length = 136
Score = 32.3 bits (72), Expect = 0.35
Identities = 16/39 (41%), Positives = 21/39 (53%)
Frame = +1
Query: 1 MNTHLRSVKLTSKNKEPINLDTFSIRGNNIRYFILPETL 117
MN L +T ++ LD IRGN IR+ ILP+ L
Sbjct: 40 MNCQLAETVVTFRDGRSHQLDNVFIRGNKIRFMILPDML 78
>sp|P62318|SMD3_HUMAN Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
sp|P62320|SMD3_MOUSE Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
sp|P62323|SMD3_XENLA Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
Length = 126
Score = 30.8 bits (68), Expect = 1.0
Identities = 15/45 (33%), Positives = 25/45 (55%)
Frame = +1
Query: 1 MNTHLRSVKLTSKNKEPINLDTFSIRGNNIRYFILPETLPLDTML 135
MN + ++ +T ++ L+ IRG+ IR+ ILP+ L ML
Sbjct: 39 MNCQMSNITVTYRDGRVAQLEQVYIRGSKIRFLILPDMLKNAPML 83
>sp|Q9LGE6|LSM4_ORYSA Probable U6 snRNA-associated Sm-like protein LSm4
Length = 147
Score = 30.0 bits (66), Expect = 1.7
Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Frame = +1
Query: 1 MNTHLRSVKLTSKNKEPI-NLDTFSIRGNNIRYFILPE 111
MN HLR V TSK+ + + IRGN I+Y +P+
Sbjct: 36 MNIHLREVICTSKDGDKFWRMPECYIRGNTIKYLRVPD 73
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,159,140
Number of Sequences: 369166
Number of extensions: 352960
Number of successful extensions: 725
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 719
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 723
length of database: 68,354,980
effective HSP length: 70
effective length of database: 55,423,530
effective search space used: 1718129430
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)